Variant report

Variant	rs3822736
Chromosome Location	chr5:35792990-35792991
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10037620	0.80[CEU][hapmap]
rs10042935	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10941262	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10941264	0.91[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs11741496	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11749262	0.84[ASW][hapmap];0.93[CHB][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.83[MEX][hapmap];0.87[TSI][hapmap];0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs13186771	0.89[CEU][hapmap];0.82[TSI][hapmap]
rs13356541	0.85[CEU][hapmap]
rs1389829	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4869476	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4869618	0.94[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56163473	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56322028	0.81[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs56345129	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6883204	0.83[AFR][1000 genomes]
rs6889260	0.86[CHB][hapmap]
rs6895099	1.00[CHB][hapmap];0.93[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.87[TSI][hapmap];0.88[YRI][hapmap];0.84[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs72738869	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72738870	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525477	chr5:35530905-35792990	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1022761	chr5:35775802-35902546	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3822736	DAB2	cis	cerebellum	SCAN
rs3822736	DNAJC21	cis	cerebellum	SCAN

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:35785000-35803200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr5:35787400-35793200	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr5:35788400-35796800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
4	chr5:35788800-35796800	Enhancers	Primary T helper cells fromperipheralblood	blood
5	chr5:35789400-35793400	Weak transcription	Thymus	Thymus
6	chr5:35789400-35793600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
7	chr5:35789400-35794000	Weak transcription	Dnd41	blood
8	chr5:35789800-35793200	Weak transcription	Fetal Thymus	thymus
9	chr5:35790800-35796800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr5:35791000-35799600	Weak transcription	Osteobl	bone
11	chr5:35791200-35794600	Weak transcription	HSMM	muscle
12	chr5:35791200-35797000	Weak transcription	NHDF-Ad	bronchial
13	chr5:35791400-35793000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr5:35791400-35793000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr5:35792200-35796800	Enhancers	Primary T killer memory cells from peripheral blood	blood
16	chr5:35792600-35797000	Enhancers	Primary T helper naive cells from peripheral blood	blood
17	chr5:35792800-35793200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
18	chr5:35792800-35793400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
19	chr5:35792800-35793600	Enhancers	Fetal Intestine Large	intestine
20	chr5:35792800-35796800	Enhancers	Primary T cells from cord blood	blood
21	chr5:35792800-35796800	Enhancers	Primary T helper naive cells fromperipheralblood	blood

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